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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ) $local_species = 'atr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ) $local_species = 'atr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ) $local_species = 'aag' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ) $local_species = 'aag' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ) $local_species = 'cbr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ) $local_species = 'cbr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ) $local_species = 'cqu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ) $local_species = 'cre' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ) $local_species = 'cre' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ) $local_species = 'car' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ) $local_species = 'mpo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ) $local_species = 'mpo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ) $local_species = 'mtr' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ) $local_species = 'mco' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ) $local_species = 'mco' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ) $local_species = 'nnu' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ) $local_species = 'ppa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ) $local_species = 'ppa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ) $local_species = 'psa' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ) $local_species = 'pco' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ) $local_species = 'pco' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ) $local_species = 'ppe' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ) $local_species = 'spa' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ) $local_species = 'smo' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ) $local_species = 'smo' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ) $local_species = 'sun' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ) $local_species = 'sgi' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ) $local_species = 'sci' $disabled = '' $selected = '' $num_hits = (int) 1include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/gf_data_settings.ctp, line 37 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Elements/analysis/phylogenetics_module/parameter_selection.ctp, line 64 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933 View::_renderElement() - CORE/Cake/View/View.php, line 1224 View::element() - CORE/Cake/View/View.php, line 418 include - APP/View/Analysis/custom_tree_creation.ctp, line 27 View::_evaluate() - CORE/Cake/View/View.php, line 971 View::_render() - CORE/Cake/View/View.php, line 933
$viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $species_info = array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ) $local_species = 'sci' $disabled = '' $selected = '' $num_hits = (int) 1
Warning (2): count(): Parameter must be an array or an object that implements Countable [APP/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp, line 33]Code Context $disabled = (!array_key_exists($local_species,$species_gene_counts))?"disabled":""; $selected = (isset($selected_species) && array_key_exists($local_species,$selected_species))?"checked='checked'":""; $num_hits = (array_key_exists($local_species,$species_gene_counts))?count($species_gene_counts[$local_species]):0; $viewFile = '/www/bioinformatics01_ro/plaza/_dev_instances/feedback/app/View/Elements/analysis/phylogenetics_module/gf_data_settings_species_selection.ctp' $dataForView = array( 'sidebar_info' => array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ), 'gf_id' => 'HOM05D001036', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001036' ), 'data_identifier' => 'HOM05D001036', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001036', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '585', 'num_species' => '99' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p39040' => 'bna', 'A05p18210' => 'bna', 'A05p34680' => 'bna', 'A06p00980' => 'bna', 'A06p09060' => 'bna', 'A06p12900' => 'bna', 'A07p43820' => 'bna', 'A07p43830' => 'bna', 'A09p15750' => 'bna', 'Aa31LG10G1710' => 'aar', 'Aa31LG2G500' => 'aar', 'Aa31LG4G2390' => 'aar', 'Aa31LG7G1840' => 'aar', 'Aa31LG8G2000' => 'aar', 'AagrBONN_evm.TU.Sc2ySwM_117.2285' => 'aag', 'Actinidia02056' => 'ach', 'Actinidia11197' => 'ach', 'Actinidia14503' => 'ach', 'Actinidia22263' => 'ach', 'Actinidia32521' => 'ach', 'Actinidia39415' => 'ach', 'Ah.02g116390' => 'amhyb', 'Ah.04g163970' => 'amhyb', 'Ah.06g186510' => 'amhyb', 'Ah.09g226500' => 'amhyb', 'Ah.12g057790' => 'amhyb', 'AL1G62050' => 'aly', 'AL2G12620' => 'aly', 'AL2G38970' => 'aly', 'AL3G27100' => 'aly', 'Aqoxy1G01885' => 'aox', 'Aqoxy1G01886' => 'aox', 'Aqoxy7G00486' => 'aox', 'Aqoxy7G03232' => 'aox', 'arahy.Tifrunner.gnm1.ann1.08TZJZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3211GC' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.5N4UPE' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.79XKZD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.A7PA2P' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.BT3S9N' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.CEWT6L' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.INAW09' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.NE0GCA' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.PFN41B' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RB932S' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.RUK088' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SCJC0Z' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SE54WH' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.YQQ37R' => 'arhy', 'AT1G53500' => 'ath', 'AT1G63000' => 'ath', 'AT1G78570' => 'ath', 'AT3G14790' => 'ath', 'ATR0580G148' => 'atr', 'ATR0757G144' => 'atr', 'Atru.chr2.1961' => 'acertr', 'Atru.chr6.1090' => 'acertr', 'Atru.chr6.1108' => 'acertr', 'Atru.chr7.2662' => 'acertr', 'Atru.chr9.1514' => 'acertr', 'AUR62010578' => 'cqu', 'AUR62013952' => 'cqu', 'AUR62017312' => 'cqu', 'AUR62019659' => 'cqu', 'BcaB02g06657' => 'bca', 'BcaB02g10916' => 'bca', 'BcaB04g17076' => 'bca', 'BcaB06g25356' => 'bca', 'BcaB07g31375' => 'bca', 'BcaB07g33325' => 'bca', 'BcaC01g01395' => 'bca', 'BcaC02g10408' => 'bca', 'BcaC04g22462' => 'bca', 'BcaC05g25129' => 'bca', 'BcaC05g25131' => 'bca', 'BcaC05g25173' => 'bca', 'BcaC05g25174' => 'bca', 'BcaC05g25175' => 'bca', 'BcaC05g25176' => 'bca', 'BcaC05g25554' => 'bca', 'BcaC05g29036' => 'bca', 'BcaC07g41447' => 'bca', 'BcaC08g43536' => 'bca', 'BcaC08g44094' => 'bca', 'BcaC08g47432' => 'bca', 'BcaC08g47433' => 'bca', 'BcaC09g48448' => 'bca', 'BolC1t04922H' => 'bol', 'BolC3t21473H' => 'bol', 'BolC5t29808H' => 'bol', 'BolC5t30239H' => 'bol', 'BolC5t33931H' => 'bol', 'BolC6t36003H' => 'bol', 'BolC6t36676H' => 'bol', 'BolC6t40266H' => 'bol', 'BolC8t51962H' => 'bol', 'BolC9t54807H' => 'bol', 'BraA01t03951Z' => 'bra', 'BraA05t20717Z' => 'bra', 'BraA05t22284Z' => 'bra', 'BraA06t23326Z' => 'bra', 'BraA06t24094Z' => 'bra', 'BraA06t24450Z' => 'bra', 'BraA07t31891Z' => 'bra', 'BraA09t37218Z' => 'bra', 'BraA09t41437Z' => 'bra', 'C01p49660' => 'bna', 'C03p91560' => 'bna', 'C04p29270' => 'bna', 'C05p10660' => 'bna', 'C05p15330' => 'bna', 'C05p52470' => 'bna', 'C06p09260' => 'bna', 'C06p14990' => 'bna', 'C06p52470' => 'bna', 'C08p44150' => 'bna', 'C09p19030' => 'bna', 'CAN.G375.53' => 'can', 'CAN.G480.4' => 'can', 'CAN.G904.30' => 'can', 'CAN.G981.53' => 'can', 'CANSAT21G2036' => 'cansat', 'CANSAT56G0890' => 'cansat', 'CANSAT64G1357' => 'cansat', 'CARHR017500' => 'chi', 'CARHR043730' => 'chi', 'CARHR048640' => 'chi', 'CARHR072060' => 'chi', 'CARHR089730' => 'chi', 'Carub.0001s4268' => 'cru', 'Carub.0002s0200' => 'cru', 'Carub.0002s2542' => 'cru', 'Carub.0003s1446' => 'cru', 'Ca_01523_v3' => 'car', 'Ca_03919_v3' => 'car', 'Ca_03926_v3' => 'car', 'Ca_20239_v3' => 'car', 'Ca_22875_v3' => 'car', 'Ca_29908_v3' => 'car', 'CBR_g35037' => 'cbr', 'CBR_g35045' => 'cbr', 'CBR_g994' => 'cbr', 'CBR_g996' => 'cbr', 'Cc00_g29010' => 'ccan', 'Cc00_g33830' => 'ccan', 'Cc05_g09270' => 'ccan', 'Cc05_g10660' => 'ccan', 'Cc08_g13830' => 'ccan', 'Cc11_g05020' => 'ccan', 'CDE02G0572' => 'cde', 'CDE02G2791' => 'cde', 'CDE06G0518' => 'cde', 'CDE11G1211' => 'cde', 'Cfa012087' => 'cfa', 'Cfa019522' => 'cfa', 'Cfa022916' => 'cfa', 'Ciclev10010306m.g' => 'ccl', 'Ciclev10019182m.g' => 'ccl', 'Ciclev10021340m.g' => 'ccl', 'Ciclev10030887m.g' => 'ccl', 'CiPaw.03G189400' => 'cil', 'CiPaw.11G142200' => 'cil', 'CiPaw.11G156400' => 'cil', 'CiPaw.12G099800' => 'cil', 'CiPaw.12G100000' => 'cil', 'CiPaw.12G111000' => 'cil', 'CiPaw.12G111100' => 'cil', 'ClCG01G003220' => 'cla', 'ClCG07G010150' => 'cla', 'ClCG08G012600' => 'cla', 'COL.COLO4_00384' => 'col', 'COL.COLO4_00385' => 'col', 'COL.COLO4_07466' => 'col', 'COL.COLO4_17154' => 'col', 'COL.COLO4_17466' => 'col', 'COL.COLO4_19018' => 'col', 'COL.COLO4_23786' => 'col', 'COL.COLO4_23787' => 'col', 'COL.COLO4_23788' => 'col', 'COL.COLO4_23789' => 'col', 'COL.COLO4_33728' => 'col', 'Cpa.g.c33489.1' => 'cpa', 'Cpa.g.c43894' => 'cpa', 'Cpa.g.sc23.32' => 'cpa', 'Cpa.g.sc23.33' => 'cpa', 'Cpa.g.sc29.25' => 'cpa', 'Cpa.g.sc50.75' => 'cpa', 'Cre02.g083800' => 'cre', 'Cre09.g387171' => 'cre', 'CsaV3_2G031320' => 'csa', 'CsaV3_4G008170' => 'csa', 'CsaV3_5G003330' => 'csa', 'CsaV3_5G026970' => 'csa', 'CSS0000791' => 'camsi', 'CSS0002169' => 'camsi', 'CSS0005524' => 'camsi', 'CSS0007309' => 'camsi', 'CSS0008612' => 'camsi', 'CSS0016369' => 'camsi', 'CSS0024174' => 'camsi', 'CSS0037627' => 'camsi', 'CSS0048055' => 'camsi', 'DCAR_000899' => 'dca', 'DCAR_006768' => 'dca', 'DCAR_013782' => 'dca', 'DCAR_021043' => 'dca', 'DCAR_021044' => 'dca', 'Dinv12696' => 'din', 'Dinv13359' => 'din', 'Dinv26704' => 'din', 'Dinv37701' => 'din', 'Dinv39026' => 'din', 'Duzib068G1224' => 'dzi', 'Duzib084G1126' => 'dzi', 'Duzib147G0703' => 'dzi', 'Duzib205G1959' => 'dzi', 'Duzib213G0076' => 'dzi', 'Duzib268G0150' => 'dzi', 'ECA233G3247' => 'eca', 'ECA236G1076' => 'eca', 'ECA238G3712' => 'eca', 'ECA240G0781' => 'eca', 'ECA240G2561' => 'eca', 'EL10Ac3g05468' => 'bvu', 'EL10Ac4g08424' => 'bvu', 'EL10Ac4g08426' => 'bvu', 'EL10Ac5g12714' => 'bvu', 'Eucgr.D01934' => 'egr', 'Eucgr.F01369' => 'egr', 'Eucgr.F03231' => 'egr', 'Eucgr.K01196' => 'egr', 'FAN02G3972' => 'fan', 'FAN04G1125' => 'fan', 'FAN05G3972' => 'fan', 'FAN08G0711' => 'fan', 'FAN09G1838' => 'fan', 'FAN11G2275' => 'fan', 'FAN13G0204' => 'fan', 'FAN14G0711' => 'fan', 'FAN15G3043' => 'fan', 'FAN16G3609' => 'fan', 'FAN18G2591' => 'fan', 'FAN18G2701' => 'fan', 'FAN20G1733' => 'fan', 'FAN21G3219' => 'fan', 'FAN25G1070' => 'fan', 'FAN27G1517' => 'fan', 'FvH4_2g36650' => 'fve', 'FvH4_3g17640' => 'fve', 'FvH4_5g01300' => 'fve', 'FvH4_6g38000' => 'fve', 'FvH4_6g38001' => 'fve', 'FvH4_6g38080' => 'fve', 'Glyma.01G215400' => 'gma', 'Glyma.05G050500' => 'gma', 'Glyma.05G061100' => 'gma', 'Glyma.08G148100' => 'gma', 'Glyma.08G309766' => 'gma', 'Glyma.08G309832' => 'gma', 'Glyma.12G234300' => 'gma', 'Glyma.13G264500' => 'gma', 'Glyma.14G136400' => 'gma', 'Glyma.15G210300' => 'gma', 'Glyma.17G132500' => 'gma', 'Glyma.17G196900' => 'gma', 'Glyma.18G106300' => 'gma', 'Gohir.A01G047050' => 'ghi', 'Gohir.A01G047100' => 'ghi', 'Gohir.A03G014328' => 'ghi', 'Gohir.A04G044900' => 'ghi', 'Gohir.A05G378100' => 'ghi', 'Gohir.A08G234100' => 'ghi', 'Gohir.A11G289600' => 'ghi', 'Gohir.D01G037750' => 'ghi', 'Gohir.D01G037800' => 'ghi', 'Gohir.D03G155500' => 'ghi', 'Gohir.D04G037501' => 'ghi', 'Gohir.D05G338200' => 'ghi', 'Gohir.D11G302800' => 'ghi', 'Gorai.002G046100' => 'gra', 'Gorai.002G046200' => 'gra', 'Gorai.003G163300' => 'gra', 'Gorai.004G271200' => 'gra', 'Gorai.007G332000' => 'gra', 'Gorai.009G362500' => 'gra', 'Gorai.012G042300' => 'gra', 'GSVIVG01014091001' => 'vvi', 'GSVIVG01019878001' => 'vvi', 'GSVIVG01033176001' => 'vvi', 'HanXRQChr01g0020021' => 'han', 'HanXRQChr02g0048671' => 'han', 'HanXRQChr03g0072801' => 'han', 'HanXRQChr03g0085861' => 'han', 'HanXRQChr05g0135611' => 'han', 'HanXRQChr05g0158891' => 'han', 'HanXRQChr05g0158901' => 'han', 'HanXRQChr13g0389751' => 'han', 'HanXRQChr13g0416711' => 'han', 'HanXRQChr15g0495381' => 'han', 'HanXRQChr16g0507431' => 'han', 'Haze_02074' => 'cav', 'Haze_08971' => 'cav', 'Haze_09253' => 'cav', 'Haze_13484' => 'cav', 'Hma1.2p1_0050F.1_g028730' => 'hma', 'Hma1.2p1_0138F.1_g062690' => 'hma', 'Hma1.2p1_0371F.1_g138240' => 'hma', 'HPP92_002853' => 'vpl', 'HPP92_007247' => 'vpl', 'HPP92_009095' => 'vpl', 'HPP92_024054' => 'vpl', 'HPP92_024055' => 'vpl', 'Hund10411' => 'sun', 'Hund11533' => 'sun', 'Hund19139' => 'sun', 'Lalb_Chr01g0016291' => 'lal', 'Lalb_Chr03g0031331' => 'lal', 'Lalb_Chr09g0324721' => 'lal', 'Lalb_Chr14g0362291' => 'lal', 'Lalb_Chr19g0133701' => 'lal', 'Lalb_Chr25g0285631' => 'lal', 'Lj1A823T38' => 'lonja', 'Lj2A198T53' => 'lonja', 'Lj2A200T31' => 'lonja', 'Lj2C200T10' => 'lonja', 'Lj2g0000633' => 'lja', 'Lj3g0005710' => 'lja', 'Lj3g0027605' => 'lja', 'Lj4g0020413' => 'lja', 'Lj5g0014803' => 'lja', 'Lj6g0024117' => 'lja', 'Lj7C747T6' => 'lonja', 'Lj8A145T74' => 'lonja', 'Lj8A241T18' => 'lonja', 'Lj8C145T9' => 'lonja', 'Lsat_1_v5_gn_6_12820' => 'lsa', 'Lsat_1_v5_gn_6_15640' => 'lsa', 'Lsat_1_v5_gn_6_43820' => 'lsa', 'Lsat_1_v5_gn_6_87881' => 'lsa', 'Lsat_1_v5_gn_7_100160' => 'lsa', 'Lsat_1_v5_gn_7_100181' => 'lsa', 'Lsat_1_v5_gn_9_101680' => 'lsa', 'Lsat_1_v5_gn_9_54221' => 'lsa', 'Manes.01G069300' => 'mes', 'Manes.02G030700' => 'mes', 'Manes.03G078900' => 'mes', 'Manes.15G098900' => 'mes', 'Manes.16G134400' => 'mes', 'Mapoly0005s0120' => 'mpo', 'Mapoly0035s0059' => 'mpo', 'MBI06_g20683_MAGBIO' => 'mbi', 'MBI07_g30206_MAGBIO' => 'mbi', 'MBI12_g29939_MAGBIO' => 'mbi', 'MBI12_g36684_MAGBIO' => 'mbi', 'MBI12_g36685_MAGBIO' => 'mbi', 'MBI12_g42333_MAGBIO' => 'mbi', 'MBI14_g08077_MAGBIO' => 'mbi', 'MCO09G501' => 'mco', 'MCO11G499' => 'mco', 'MD03G1138100' => 'mdo', 'MD03G1250400' => 'mdo', 'MD04G1069500' => 'mdo', 'MD06G1070600' => 'mdo', 'MD09G1154200' => 'mdo', 'MD09G1154300' => 'mdo', 'MD09G1154400' => 'mdo', 'MD09G1154500' => 'mdo', 'MD09G1154600' => 'mdo', 'MD09G1154700' => 'mdo', 'MD11G1270500' => 'mdo', 'MD15G1106300' => 'mdo', 'MD17G1140800' => 'mdo', 'Medtr0034s0060' => 'mtr', 'Medtr1g009600' => 'mtr', 'Medtr2g073240' => 'mtr', 'Medtr3g452330' => 'mtr', 'Medtr4g102550' => 'mtr', 'MELO3C005621.2' => 'cme', 'MELO3C011180.2' => 'cme', 'MELO3C016119.2' => 'cme', 'Migut.E01151' => 'egut', 'Migut.E01153' => 'egut', 'Migut.E01156' => 'egut', 'Migut.H02027' => 'egut', 'Migut.M00514' => 'egut', 'Migut.M00690' => 'egut', 'MSTRG.12857' => 'ama', 'MSTRG.13812' => 'ama', 'MSTRG.14254' => 'ama', 'MSTRG.14986' => 'ama', 'MSTRG.1903' => 'ama', 'Nitab4.5_0000347g0010' => 'nta', 'Nitab4.5_0000383g0010' => 'nta', 'Nitab4.5_0000502g0020' => 'nta', 'Nitab4.5_0001140g0170' => 'nta', 'Nitab4.5_0001714g0120' => 'nta', 'Nitab4.5_0001853g0090' => 'nta', 'Nitab4.5_0001853g0110' => 'nta', 'Nitab4.5_0005048g0080' => 'nta', 'Nitab4.5_0013045g0010' => 'nta', 'Nitab4.5_0013477g0010' => 'nta', 'Nn1g01305' => 'nnu', 'Nn2g12475' => 'nnu', 'Nn3g20968' => 'nnu', 'Nn5g27429' => 'nnu', 'Nn6g34300' => 'nnu', 'Nn8g40253' => 'nnu', 'Oeu006145.1' => 'oeu', 'Oeu010035.1' => 'oeu', 'Oeu012392.1' => 'oeu', 'Oeu014132.1' => 'oeu', 'Oeu050681.1' => 'oeu', 'Oeu058451.1' => 'oeu', 'Os02g0678400' => 'osa', 'Os03g0278200' => 'osa', 'Os05g0203400' => 'osa', 'Peaxi162Scf00111g01320' => 'pax', 'Peaxi162Scf00213g00710' => 'pax', 'Peaxi162Scf00620g00712' => 'pax', 'Peaxi162Scf00692g00113' => 'pax', 'PGR031G0570' => 'pgr', 'PGR031G2175' => 'pgr', 'PGR042G1152' => 'pgr', 'PGSC0003DMG400007059' => 'stu', 'PGSC0003DMG400021254' => 'stu', 'PGSC0003DMG400029550' => 'stu', 'PGSC0003DMG402022737' => 'stu', 'Phvul.001G060400' => 'pvu', 'Phvul.002G153500' => 'pvu', 'Phvul.003G213400' => 'pvu', 'Phvul.005G076400' => 'pvu', 'Phvul.006G034000' => 'pvu', 'Potri.001G112000' => 'ptr', 'Potri.001G383500' => 'ptr', 'Potri.003G120000' => 'ptr', 'Potri.006G272700' => 'ptr', 'Potri.011G103700' => 'ptr', 'Pp3c12_7560' => 'ppa', 'Pp3c16_7970' => 'ppa', 'Pp3c21_9860' => 'ppa', 'Pp3c25_5230' => 'ppa', 'Pp3c26_15260' => 'ppa', 'Pp3c3_35670' => 'ppa', 'Pp3c5_10340' => 'ppa', 'Pp3c5_13210' => 'ppa', 'Pp3c6_15170' => 'ppa', 'Pp3c6_15300' => 'ppa', 'Pp3c6_15310' => 'ppa', 'Pp3c8_13780' => 'ppa', 'PRCOL_00002895' => 'pco', 'PRCOL_00005699' => 'pco', 'Prupe.1G458500' => 'ppe', 'Prupe.3G170800' => 'ppe', 'Prupe.4G155800' => 'ppe', 'Prupe.5G088400' => 'ppe', 'Psat1g006880' => 'psa', 'Psat4g066400' => 'psa', 'Psat4g176560' => 'psa', 'Psat6g033440' => 'psa', 'PSO017G4973' => 'pso', 'PSO063G2839' => 'pso', 'PSO170G2227' => 'pso', 'PSO170G6493' => 'pso', 'PSO478G4525' => 'pso', 'PSO541G6157' => 'pso', 'PSO675G3453' => 'pso', 'PSO782G5705' => 'pso', 'QL08p024306' => 'qlo', 'QL08p043868' => 'qlo', 'QL08p043887' => 'qlo', 'QL12p016675' => 'qlo', 'QL12p025527' => 'qlo', 'RcHm_v2.0_Chr2g0151131' => 'rch', 'RcHm_v2.0_Chr5g0029371' => 'rch', 'RcHm_v2.0_Chr6g0305141' => 'rch', 'RcHm_v2.0_Chr7g0199641' => 'rch', 'Rhsim01G0183500' => 'rsi', 'Rhsim06G0119000' => 'rsi', 'Rhsim06G0212400' => 'rsi', 'Rhsim07G0096000' => 'rsi', 'RhsimUnG0206500' => 'rsi', 'Sabra01G0085500' => 'sbr', 'Sabra03G0084100' => 'sbr', 'Sabra06G0211100' => 'sbr', 'Sabra11G0077100' => 'sbr', 'Sabra11G0081900' => 'sbr', 'Sabra16G0252600' => 'sbr', 'SalBow6G3493' => 'sbo', 'SalBow6G5873' => 'sbo', 'SalBow7G3346' => 'sbo', 'SalBow8G1354' => 'sbo', 'SalBow8G2681' => 'sbo', 'Sc01g0008840' => 'sci', 'Sc03g0010730' => 'sci', 'Sc16g0005510' => 'sci', 'Sc16g0005520' => 'sci', 'Sc16g0007770' => 'sci', 'Sed0005146' => 'sed', 'Sed0005479' => 'sed', 'Sed0011910' => 'sed', 'Sed0015525' => 'sed', 'Sed0027817' => 'sed', 'SEGI_10614' => 'sgi', 'SEGI_17745' => 'sgi', 'SEGI_36147' => 'sgi', 'SGA_v2.0_scaffold130G34358' => 'sas', 'SGA_v2.0_scaffold146G36208' => 'sas', 'SGA_v2.0_scaffold181G39768' => 'sas', 'SGA_v2.0_scaffold196G40898' => 'sas', 'SGA_v2.0_scaffold286G47119' => 'sas', 'SGA_v2.0_scaffold4G02150' => 'sas', 'SGA_v2.0_scaffold73G24381' => 'sas', 'SMO351G0430' => 'smo', 'SMO356G0589' => 'smo', 'Solyc07g062130.3' => 'sly', 'Solyc08g069110.3' => 'sly', 'Solyc08g080140.4' => 'sly', 'Solyc10g007480.4' => 'sly', 'Sopen07g030400' => 'spe', 'Sopen08g022760' => 'spe', 'Sopen08g028500' => 'spe', 'Sopen10g003420' => 'spe', 'Sp1g11160' => 'spa', 'Sp1g15120' => 'spa', 'Sp1g40030' => 'spa', 'Sp2g01580' => 'spa', 'Sp3g13010' => 'spa', 'Sp5g33660' => 'spa', 'TAR374G1561' => 'tar', 'TAR375G0619' => 'tar', 'TAR383G1059' => 'tar', 'TAR626G1019' => 'tar', 'TAR626G1433' => 'tar', 'TAR627G0412' => 'tar', 'TAR629G2047' => 'tar', 'THA.LOC104809430' => 'tha', 'THA.LOC104810424' => 'tha', 'THA.LOC104812303' => 'tha', 'THA.LOC104822576' => 'tha', 'THA.LOC104823569' => 'tha', 'Thecc.01G160500' => 'tca', 'Thecc.03G268900' => 'tca', 'Thecc.03G269000' => 'tca', 'Thecc.03G269100' => 'tca', 'Thecc.07G134400' => 'tca', 'Thecc.09G008700' => 'tca', 'Thhalv10011290m.g' => 'esa', 'Thhalv10018232m.g' => 'esa', 'Thhalv10020227m.g' => 'esa', 'Thhalv10023613m.g' => 'esa', 'TPR.G10970' => 'tpr', 'TPR.G11984' => 'tpr', 'TPR.G16465' => 'tpr', 'TPR.G16785' => 'tpr', 'TPR.G21364' => 'tpr', 'TPR.G34997' => 'tpr', 'TPR.G37626' => 'tpr', 'TWI15G1118' => 'twi', 'TWI32G1127' => 'twi', 'TWI38G1922' => 'twi', 'TWI39G0085' => 'twi', 'TWI63G0218' => 'twi', 'TWI81G0066' => 'twi', 'unitig_21.g20060' => 'ugi', 'unitig_26.g9515' => 'ugi', 'unitig_26.g9516' => 'ugi', 'unitig_699.g19238' => 'ugi', 'unitig_744.g24327' => 'ugi', 'unitig_85.g27386' => 'ugi', 'vmacro09416' => 'vma', 'vmacro11975' => 'vma', 'vmacro12449' => 'vma', 'vmacro14010' => 'vma', 'VMungo0540G1115' => 'vmu', 'VMungo0647G0440' => 'vmu', 'VMungo1080G0370' => 'vmu', 'VMungo1215G1465' => 'vmu', 'Zm00001eb012590' => 'zma', 'Zm00001eb043460' => 'zma', 'Zm00001eb155810' => 'zma', 'Zm00001eb155820' => 'zma', 'Zm00001eb209990' => 'zma', 'Zm00001eb250610' => 'zma', 'Zm00001eb284390' => 'zma', 'Zm00001eb397570' => 'zma' ) $gf_id = 'HOM05D001036' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001036' ) $data_identifier = 'HOM05D001036' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 20, 'aar' => (int) 5, 'aag' => (int) 1, 'ach' => (int) 6, 'amhyb' => (int) 5, 'aly' => (int) 4, 'aox' => (int) 4, 'arhy' => (int) 15, 'ath' => (int) 4, 'atr' => (int) 2, 'acertr' => (int) 5, 'cqu' => (int) 4, 'bca' => (int) 23, 'bol' => (int) 10, 'bra' => (int) 9, 'can' => (int) 4, 'cansat' => (int) 3, 'chi' => (int) 5, 'cru' => (int) 4, 'car' => (int) 6, 'cbr' => (int) 4, 'ccan' => (int) 6, 'cde' => (int) 4, 'cfa' => (int) 3, 'ccl' => (int) 4, 'cil' => (int) 7, 'cla' => (int) 3, 'col' => (int) 11, 'cpa' => (int) 6, 'cre' => (int) 2, 'csa' => (int) 4, 'camsi' => (int) 9, 'dca' => (int) 5, 'din' => (int) 5, 'dzi' => (int) 6, 'eca' => (int) 5, 'bvu' => (int) 4, 'egr' => (int) 4, 'fan' => (int) 16, 'fve' => (int) 6, 'gma' => (int) 13, 'ghi' => (int) 13, 'gra' => (int) 7, 'vvi' => (int) 3, 'han' => (int) 11, 'cav' => (int) 4, 'hma' => (int) 3, 'vpl' => (int) 5, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 8, 'lja' => (int) 6, 'lsa' => (int) 8, 'mes' => (int) 5, 'mpo' => (int) 2, 'mbi' => (int) 7, 'mco' => (int) 2, 'mdo' => (int) 13, 'mtr' => (int) 5, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 5, 'nta' => (int) 10, 'nnu' => (int) 6, 'oeu' => (int) 6, 'osa' => (int) 3, 'pax' => (int) 4, 'pgr' => (int) 3, 'stu' => (int) 4, 'pvu' => (int) 5, 'ptr' => (int) 5, 'ppa' => (int) 12, 'pco' => (int) 2, 'ppe' => (int) 4, 'psa' => (int) 4, 'pso' => (int) 8, 'qlo' => (int) 5, 'rch' => (int) 4, 'rsi' => (int) 5, 'sbr' => (int) 6, 'sbo' => (int) 5, 'sci' => (int) 5, 'sed' => (int) 5, 'sgi' => (int) 3, 'sas' => (int) 7, 'smo' => (int) 2, 'sly' => (int) 4, 'spe' => (int) 4, 'spa' => (int) 6, 'tar' => (int) 7, 'tha' => (int) 5, 'tca' => (int) 6, 'esa' => (int) 4, 'tpr' => (int) 7, 'twi' => (int) 6, 'ugi' => (int) 6, 'vma' => (int) 4, 'vmu' => (int) 4, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb397570' $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